Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/4e4cf180d1346b4ab6a60b916fd0a4/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/5fbc51a805066aeb16dbc3810c27aa/GM24385_0001_RNA_0001_23H5VFLT4_s16.Aligned.sortedByCoord.out.bam Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/4e4cf180d1346b4ab6a60b916fd0a4/.command.run ==> STAGING COMPLETE (3 inputs) PAIRED_END_BAM_INPUT Processed 1000000 records Processed 2000000 records Processed 3000000 records Processed 4000000 records Processed 5000000 records Processed 6000000 records Processed 7000000 records Processed 8000000 records Processed 9000000 records Processed 10000000 records Processed 11000000 records Processed 12000000 records Processed 13000000 records Processed 14000000 records Processed 15000000 records Processed 16000000 records Processed 17000000 records Processed 18000000 records Processed 19000000 records Processed 20000000 records Processed 21000000 records 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Processed 59000000 records Processed 60000000 records Processed 61000000 records Processed 62000000 records Processed 63000000 records Processed 64000000 records Processed 65000000 records Processed 66000000 records Processed 67000000 records Processed 68000000 records Processed 69000000 records Processed 70000000 records Processed 71000000 records Processed 72000000 records Processed 73000000 records Processed 74000000 records Processed 75000000 records Processed 76000000 records Processed 77000000 records Processed 78000000 records Processed 79000000 records Processed 80000000 records Processed 81000000 records Processed 82000000 records Processed 83000000 records Processed 84000000 records Processed 85000000 records Processed 86000000 records Processed 87000000 records Processed 88000000 records Processed 89000000 records Processed 90000000 records Processed 91000000 records Processed 92000000 records Processed 93000000 records Processed 94000000 records Processed 95000000 records Processed 96000000 records Processed 97000000 records Processed 98000000 records Processed 99000000 records Processed 100000000 records Processed 101000000 records Processed 102000000 records Processed 103000000 records Processed 104000000 records Processed 105000000 records Processed 106000000 records Processed 107000000 records Processed 108000000 records Processed 109000000 records Processed 110000000 records Processed 111000000 records Processed 112000000 records Processed 113000000 records Processed 114000000 records Processed 115000000 records Processed 116000000 records Processed 117000000 records Processed 118000000 records Processed 119000000 records Processed 120000000 records Processed 121000000 records Processed 122000000 records Processed 123000000 records Processed 124000000 records Processed 125000000 records Processed 126000000 records Processed 127000000 records Processed 128000000 records Processed 129000000 records Processed 130000000 records Processed 131000000 records Processed 132000000 records Processed 133000000 records Processed 134000000 records Processed 135000000 records Processed 136000000 records Processed 137000000 records Processed 138000000 records Processed 139000000 records Processed 140000000 records Processed 141000000 records Processed 142000000 records Processed 143000000 records Processed 144000000 records Processed 145000000 records Processed 146000000 records Processed 147000000 records Processed 148000000 records Processed 149000000 records Processed 150000000 records Processed 151000000 records Processed 152000000 records Processed 153000000 records Processed 154000000 records Processed 155000000 records Processed 156000000 records Processed 157000000 records Processed 158000000 records Processed 159000000 records Processed 160000000 records Processed 161000000 records Processed 162000000 records Processed 163000000 records Processed 164000000 records Processed 165000000 records Processed 166000000 records Processed 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Processed 203000000 records Processed 204000000 records Processed 205000000 records Processed 206000000 records Processed 207000000 records Processed 208000000 records Processed 209000000 records Processed 210000000 records Processed 211000000 records Processed 212000000 records Processed 213000000 records Processed 214000000 records Processed 215000000 records Processed 216000000 records Processed 217000000 records Processed 218000000 records Processed 219000000 records Processed 220000000 records Processed 221000000 records Processed 222000000 records Processed 223000000 records Processed 224000000 records Processed 225000000 records Processed 226000000 records Processed 227000000 records Processed 228000000 records Processed 229000000 records Processed 230000000 records Processed 231000000 records Processed 232000000 records Processed 233000000 records Processed 234000000 records Processed 235000000 records Processed 236000000 records Processed 237000000 records Processed 238000000 records Processed 239000000 records Processed 240000000 records Processed 241000000 records Processed 242000000 records Processed 243000000 records Processed 244000000 records Processed 245000000 records Processed 246000000 records Processed 247000000 records Processed 248000000 records Processed 249000000 records Processed 250000000 records Processed 251000000 records Processed 252000000 records Processed 253000000 records Processed 254000000 records Processed 255000000 records Processed 256000000 records Processed 257000000 records Processed 258000000 records Processed 259000000 records Processed 260000000 records Processed 261000000 records Processed 262000000 records Processed 263000000 records Processed 264000000 records Processed 265000000 records Processed 266000000 records Processed 267000000 records Processed 268000000 records Processed 269000000 records Processed 270000000 records Processed 271000000 records Processed 272000000 records Processed 273000000 records Processed 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Processed 310000000 records Processed 311000000 records Processed 312000000 records Processed 313000000 records Processed 314000000 records Processed 315000000 records Processed 316000000 records Processed 317000000 records Processed 318000000 records Processed 319000000 records Processed 320000000 records Processed 321000000 records Processed 322000000 records Processed 323000000 records Processed 324000000 records Processed 325000000 records Processed 326000000 records Processed 327000000 records Processed 328000000 records Processed 329000000 records Processed 330000000 records Processed 331000000 records Processed 332000000 records Processed 333000000 records Processed 334000000 records Processed 335000000 records Processed 336000000 records Processed 337000000 records Processed 338000000 records Processed 339000000 records Processed 340000000 records Processed 341000000 records Processed 342000000 records Processed 343000000 records Processed 344000000 records Processed 345000000 records Processed 346000000 records Processed 347000000 records Processed 348000000 records Processed 349000000 records Processed 350000000 records Processed 351000000 records Processed 352000000 records Processed 353000000 records Processed 354000000 records Processed 355000000 records Processed 356000000 records Processed 357000000 records Processed 358000000 records Processed 359000000 records Processed 360000000 records Processed 361000000 records Processed 362000000 records Processed 363000000 records Processed 364000000 records Processed 365000000 records Processed 366000000 records Processed 367000000 records Processed 368000000 records Processed 369000000 records Processed 370000000 records Processed 371000000 records Processed 372000000 records Processed 373000000 records Processed 374000000 records Processed 375000000 records Processed 376000000 records Processed 377000000 records Processed 378000000 records Processed 379000000 records Processed 380000000 records Processed 381000000 records Processed 382000000 records Processed 383000000 records Processed 384000000 records Processed 385000000 records Processed 386000000 records Processed 387000000 records Processed 388000000 records Processed 389000000 records Processed 390000000 records Processed 391000000 records Processed 392000000 records Processed 393000000 records Processed 394000000 records Processed 395000000 records Processed 396000000 records Processed 397000000 records Processed 398000000 records Processed 399000000 records Processed 400000000 records Processed 401000000 records Processed 402000000 records Processed 403000000 records Processed 404000000 records Processed 405000000 records Processed 406000000 records Processed 407000000 records Processed 408000000 records Processed 409000000 records Processed 410000000 records Processed 411000000 records Processed 412000000 records Processed 413000000 records Processed 414000000 records Processed 415000000 records Processed 416000000 records Processed 417000000 records Processed 418000000 records Processed 419000000 records Processed 420000000 records Processed 421000000 records Processed 422000000 records Processed 423000000 records Processed 424000000 records Processed 425000000 records Processed 426000000 records Processed 427000000 records Processed 428000000 records Processed 429000000 records Processed 430000000 records Processed 431000000 records Processed 432000000 records Processed 433000000 records Processed 434000000 records Processed 435000000 records Processed 436000000 records Processed 437000000 records Processed 438000000 records Processed 439000000 records Processed 440000000 records Processed 441000000 records Processed 442000000 records Processed 443000000 records Processed 444000000 records Processed 445000000 records Processed 446000000 records Processed 447000000 records Processed 448000000 records Processed 449000000 records Processed 450000000 records Processed 451000000 records Processed 452000000 records Processed 453000000 records Processed 454000000 records Processed 455000000 records Processed 456000000 records Processed 457000000 records Processed 458000000 records Processed 459000000 records Processed 460000000 records Processed 461000000 records Processed 462000000 records Processed 463000000 records Processed 464000000 records Processed 465000000 records Processed 466000000 records Processed 467000000 records Processed 468000000 records Processed 469000000 records Processed 470000000 records Processed 471000000 records Processed 472000000 records Processed 473000000 records Processed 474000000 records Processed 475000000 records Processed 476000000 records Processed 477000000 records Processed 478000000 records Processed 479000000 records Processed 480000000 records Processed 481000000 records Processed 482000000 records Processed 483000000 records Processed 484000000 records Processed 485000000 records Processed 486000000 records Processed 487000000 records Processed 488000000 records Processed 489000000 records Processed 490000000 records Processed 491000000 records Processed 492000000 records Processed 493000000 records Processed 494000000 records Processed 495000000 records Processed 496000000 records Processed 497000000 records Processed 498000000 records Processed 499000000 records Processed 500000000 records Processed 501000000 records Processed 502000000 records Processed 503000000 records Processed 504000000 records Processed 505000000 records Processed 506000000 records Processed 507000000 records Processed 508000000 records Processed 509000000 records Processed 510000000 records Processed 511000000 records Processed 512000000 records Processed 513000000 records Processed 514000000 records Processed 515000000 records Processed 516000000 records Processed 517000000 records Processed 518000000 records Processed 519000000 records Processed 520000000 records Processed 521000000 records Processed 522000000 records Processed 523000000 records Processed 524000000 records Processed 525000000 records Processed 526000000 records Processed 527000000 records Processed 528000000 records Processed 529000000 records Processed 530000000 records Processed 531000000 records Processed 532000000 records Processed 533000000 records Processed 534000000 records Processed 535000000 records Processed 536000000 records Processed 537000000 records Processed 538000000 records Processed 539000000 records Processed 540000000 records Processed 541000000 records Processed 542000000 records Processed 543000000 records Processed 544000000 records Processed 545000000 records Processed 546000000 records Processed 547000000 records Processed 548000000 records Processed 549000000 records Processed 550000000 records Processed 551000000 records Processed 552000000 records Processed 553000000 records Processed 554000000 records Processed 555000000 records Processed 556000000 records Processed 557000000 records Processed 558000000 records Processed 559000000 records Processed 560000000 records Processed 561000000 records Processed 562000000 records Processed 563000000 records Processed 564000000 records Processed 565000000 records Processed 566000000 records Processed 567000000 records Processed 568000000 records Processed 569000000 records Processed 570000000 records Processed 571000000 records Processed 572000000 records Processed 573000000 records paired = 284583447 unpaired = 4008771 MERGED PAIRED END READS = 284583447 MATES PROCESSED = 573175665 TOTAL READS = 288592218 DISTINCT READS = 1.00419e+08 DISTINCT COUNTS = 1064 MAX COUNT = 577477 COUNTS OF 1 = 4.30793e+07 MAX TERMS = 100 OBSERVED COUNTS (577478) 1 43079303 2 20830145 3 12172349 4 7743865 5 5080549 6 3379488 7 2272743 8 1549264 9 1071326 10 755950 11 541134 12 396039 13 294989 14 221454 15 170633 16 133327 17 104872 18 84169 19 68629 20 56013 21 46348 22 38918 23 33175 24 27863 25 23902 26 20650 27 18013 28 15730 29 14070 30 12470 31 11271 32 9767 33 8856 34 7958 35 7171 36 6667 37 5913 38 5458 39 5119 40 4696 41 4235 42 4036 43 3552 44 3314 45 3165 46 2953 47 2753 48 2515 49 2357 50 2257 51 2112 52 1957 53 1861 54 1711 55 1695 56 1567 57 1478 58 1446 59 1307 60 1234 61 1270 62 1149 63 1080 64 1024 65 956 66 923 67 896 68 874 69 833 70 799 71 772 72 710 73 661 74 736 75 694 76 596 77 694 78 552 79 526 80 526 81 553 82 474 83 494 84 452 85 490 86 441 87 404 88 428 89 388 90 359 91 365 92 380 93 369 94 328 95 318 96 321 97 337 98 312 99 286 100 279 101 273 102 270 103 255 104 245 105 242 106 240 107 224 108 242 109 243 110 213 111 220 112 230 113 230 114 225 115 230 116 213 117 177 118 169 119 165 120 164 121 158 122 159 123 148 124 161 125 165 126 136 127 143 128 130 129 154 130 162 131 141 132 117 133 134 134 138 135 133 136 114 137 126 138 129 139 126 140 106 141 116 142 101 143 112 144 111 145 97 146 112 147 115 148 107 149 101 150 102 151 95 152 103 153 76 154 88 155 98 156 93 157 95 158 91 159 81 160 70 161 93 162 101 163 84 164 87 165 83 166 65 167 69 168 60 169 60 170 80 171 59 172 70 173 58 174 63 175 55 176 65 177 60 178 62 179 63 180 64 181 55 182 77 183 51 184 60 185 53 186 48 187 49 188 50 189 53 190 50 191 54 192 59 193 52 194 47 195 53 196 51 197 55 198 52 199 54 200 56 201 47 202 50 203 43 204 30 205 33 206 44 207 58 208 45 209 46 210 40 211 43 212 31 213 38 214 38 215 45 216 38 217 36 218 37 219 34 220 43 221 43 222 30 223 31 224 45 225 40 226 36 227 35 228 41 229 36 230 35 231 37 232 38 233 27 234 28 235 32 236 33 237 31 238 33 239 20 240 32 241 21 242 29 243 30 244 28 245 29 246 29 247 37 248 25 249 21 250 18 251 35 252 18 253 33 254 15 255 35 256 34 257 26 258 25 259 21 260 35 261 27 262 23 263 24 264 20 265 28 266 22 267 19 268 19 269 7 270 16 271 23 272 19 273 22 274 24 275 19 276 16 277 20 278 19 279 24 280 18 281 26 282 20 283 14 284 13 285 22 286 14 287 19 288 15 289 18 290 10 291 25 292 15 293 19 294 12 295 19 296 13 297 11 298 9 299 16 300 19 301 11 302 12 303 14 304 13 305 12 306 18 307 20 308 17 309 17 310 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3 648 4 650 3 651 4 652 3 653 1 654 1 655 2 657 1 658 4 659 1 660 1 661 1 662 1 663 3 665 3 667 1 668 2 669 1 670 1 671 5 672 3 673 1 674 5 675 1 676 2 677 1 678 6 679 1 680 1 681 4 683 1 684 1 685 3 686 4 687 1 688 1 689 1 690 1 691 4 692 3 693 1 694 1 695 4 696 1 697 2 698 2 699 1 700 6 701 2 702 3 703 2 704 2 705 1 706 2 707 1 708 2 710 3 711 1 713 2 714 2 716 1 717 1 718 1 719 2 720 4 722 4 723 1 725 1 726 2 727 2 728 1 731 4 733 5 735 3 736 1 737 2 739 1 740 1 742 1 743 3 744 2 745 3 746 1 749 1 750 3 751 1 752 3 753 1 754 1 757 3 758 1 759 2 761 4 763 1 764 2 765 2 766 1 768 1 769 1 770 1 773 5 774 2 776 2 780 1 781 1 782 2 783 2 784 2 785 1 786 1 788 1 789 1 790 1 792 2 794 1 795 2 797 1 799 1 801 1 803 3 804 1 806 1 808 1 809 3 810 1 812 1 813 3 815 1 816 1 819 1 821 2 822 1 823 1 825 2 827 2 829 1 830 1 831 1 832 3 833 1 834 1 835 4 836 1 837 2 838 4 839 2 840 1 841 2 842 2 843 1 844 1 845 2 846 1 847 1 848 1 849 1 851 1 852 2 855 1 856 1 857 3 858 3 861 1 863 2 865 2 866 2 868 1 871 2 873 1 874 1 877 1 878 1 879 1 880 2 881 1 882 1 883 2 884 2 885 3 890 1 891 1 892 1 893 1 894 1 895 1 896 1 898 1 899 1 901 2 902 2 904 1 906 2 907 1 909 1 910 2 911 2 913 1 918 3 919 1 922 1 923 2 925 1 929 1 932 1 934 1 935 1 936 1 943 3 945 1 946 2 947 1 948 1 952 1 953 3 955 1 957 1 958 1 959 1 961 2 962 2 963 1 964 1 966 1 971 2 972 1 973 2 975 1 977 1 978 1 979 1 980 1 981 1 982 1 983 1 986 1 989 1 991 1 995 1 999 1 1004 3 1006 1 1012 1 1014 1 1015 1 1021 2 1023 2 1026 1 1027 2 1031 1 1033 1 1036 1 1046 1 1047 1 1051 1 1054 1 1055 1 1057 1 1059 1 1067 1 1069 1 1070 1 1073 1 1074 1 1076 1 1077 1 1079 1 1080 1 1081 1 1082 1 1089 2 1090 1 1092 1 1094 1 1096 1 1099 1 1106 1 1107 1 1114 2 1124 1 1126 1 1131 1 1136 1 1144 1 1145 2 1147 1 1148 1 1149 1 1151 1 1154 2 1158 1 1161 1 1166 1 1168 1 1169 2 1176 1 1180 1 1184 1 1188 2 1196 1 1202 1 1205 1 1218 1 1221 1 1228 1 1230 1 1232 2 1234 1 1235 1 1238 1 1239 1 1247 1 1252 1 1256 1 1257 1 1270 1 1273 2 1274 1 1277 1 1279 1 1280 1 1285 1 1287 1 1293 2 1297 1 1302 1 1303 1 1304 2 1311 1 1315 1 1327 1 1353 2 1359 1 1360 1 1366 1 1368 1 1369 1 1370 1 1385 1 1404 2 1406 1 1407 1 1416 1 1419 1 1428 2 1433 1 1443 1 1448 1 1451 1 1452 1 1458 1 1459 1 1476 1 1480 1 1491 1 1495 1 1513 1 1516 1 1517 1 1518 1 1528 1 1532 1 1535 1 1541 1 1547 1 1559 1 1565 1 1572 1 1583 1 1587 1 1590 1 1596 1 1629 1 1640 1 1649 1 1650 1 1662 2 1666 1 1673 1 1680 1 1694 1 1718 1 1722 1 1727 1 1776 1 1790 1 1821 1 1847 1 1885 1 1923 1 1927 1 1932 1 1935 1 1963 1 1967 1 1990 1 2002 1 2039 1 2050 1 2074 1 2089 1 2094 1 2111 1 2121 1 2144 1 2152 1 2168 1 2215 1 2234 1 2384 1 2393 1 2471 1 2506 1 2509 1 2561 1 2966 1 3075 1 3088 1 3316 1 3322 1 3359 1 3373 1 3558 1 3863 1 3868 1 4918 1 6414 1 7479 1 11051 1 25219 1 577477 1 [ESTIMATING YIELD CURVE] [BOOTSTRAPPING HISTOGRAM] .._.......__......_._._...._......_....__..._...._._.__............_.... ........._..._............._............_....... [COMPUTING CONFIDENCE INTERVALS] [WRITING OUTPUT]